Contacts of the helix formed by residues 92 - 119 (chain C) in PDB entry 1IES
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with THR 92 (chain C).
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
37C PHE* 4.0 13.2 - - - -
44C LEU* 4.2 3.8 - - - +
47C VAL* 3.9 33.3 - - + +
91C THR* 1.3 70.3 - - - +
93C LEU* 1.3 57.2 + - - +
95C ALA* 3.2 2.2 + - + +
96C MET* 2.8 35.8 + - + +
151C ILE* 3.6 24.5 - - + -
163C GLU* 2.7 33.4 + - - +
166C PHE* 4.3 16.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 93 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
91C THR* 3.1 9.6 + - - +
92C THR* 1.3 73.1 - - - +
94C ASP* 1.3 72.4 + - - +
96C MET* 3.3 0.7 + - - -
97C LYS* 3.0 50.2 + - + +
148C LEU* 3.5 27.4 - - + -
151C ILE* 4.2 27.4 - - + +
152C GLN* 3.8 31.0 - - + +
155C VAL* 4.5 20.9 - - + -
163C GLU* 5.6 0.6 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 94 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
89C TRP 3.5 17.0 - - - +
90C GLY* 3.9 5.5 - - - -
91C THR* 3.0 29.1 + - - +
93C LEU* 1.3 83.7 - - - +
95C ALA* 1.3 60.7 + - - +
97C LYS* 3.4 12.8 + - - +
98C ALA* 3.1 23.8 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 95 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C LEU* 3.8 13.6 - - + +
37C PHE* 3.6 29.8 - - + -
51C PHE* 3.8 17.4 - - + -
89C TRP* 3.8 7.5 + - - +
91C THR 2.8 16.5 + - - +
92C THR* 3.5 4.7 - - - +
94C ASP* 1.3 76.5 - - - +
96C MET* 1.3 61.9 + - - +
98C ALA* 3.4 5.2 + - - +
99C ALA* 3.0 22.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with MET 96 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
47C VAL* 5.6 0.9 - - + -
50C PHE* 3.5 40.4 - - + -
51C PHE* 4.2 11.0 - - + -
92C THR* 2.8 28.6 + - + +
93C LEU 3.9 0.2 - - - +
95C ALA* 1.3 68.0 - - - +
97C LYS* 1.3 62.0 + - - +
99C ALA* 3.2 4.9 + - - +
100C ILE* 2.8 31.5 + - - +
144C MET* 4.5 13.4 - - - +
147C HIS* 4.1 29.2 - - + -
148C LEU* 3.7 23.0 - - + +
151C ILE* 3.5 22.4 - - + -
166C PHE* 4.8 5.2 - - + -
171C LEU* 5.1 4.3 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 97 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
93C LEU* 3.0 42.9 + - + +
94C ASP* 3.6 12.0 + - - +
96C MET* 1.3 76.9 - - - +
98C ALA* 1.3 61.7 + - - +
100C ILE* 3.1 25.8 - - + +
101C VAL* 3.1 14.3 + - + +
148C LEU* 3.5 14.8 - - + -
152C GLN* 3.8 24.2 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 98 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
33C LEU* 5.4 3.6 - - + -
86C GLN* 5.1 5.2 - - - +
89C TRP* 4.3 28.7 - - + -
94C ASP 3.1 13.4 + - - +
95C ALA 3.6 8.1 - - - +
97C LYS* 1.3 74.9 - - - +
99C ALA* 1.3 57.6 + - - +
101C VAL* 3.3 8.6 + - - +
102C LEU* 2.9 28.2 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 99 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C TYR* 3.6 17.9 + - + +
33C LEU* 4.9 3.3 - - + +
51C PHE* 3.8 24.9 - - + -
95C ALA 3.0 16.7 + - - +
96C MET* 3.6 7.2 - - - +
98C ALA* 1.3 75.6 - - - +
100C ILE* 1.3 57.9 + - - +
102C LEU* 3.1 7.6 + - - +
103C GLU* 2.9 29.8 + - - +
144C MET* 3.9 13.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ILE 100 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3B GLN* 4.2 15.5 - - + +
4B ILE* 4.0 27.1 - - + -
96C MET 2.8 18.3 + - - +
97C LYS* 3.1 21.5 - - - +
99C ALA* 1.3 71.9 - - - +
101C VAL* 1.3 61.5 + - + +
103C GLU* 3.4 1.8 + - - +
104C LYS* 2.9 41.1 + - + +
141C ILE* 4.2 10.8 - - + +
144C MET* 4.0 17.0 - - + -
145C GLY* 4.1 14.8 - - - +
148C LEU* 4.0 20.0 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with VAL 101 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
97C LYS* 3.1 15.2 + - + +
98C ALA* 3.5 11.9 - - - +
100C ILE* 1.3 81.5 - - + +
102C LEU* 1.3 62.8 + - - +
104C LYS* 3.3 10.1 + - - +
105C SER* 3.1 22.9 + - - -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 102 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
26C ALA* 4.1 24.5 - - + -
29C THR* 3.8 31.4 - - + +
30C TYR* 3.7 33.4 - - + +
33C LEU* 5.6 0.2 - - + -
98C ALA 2.9 13.4 + - - +
99C ALA* 3.3 9.2 - - - +
101C VAL* 1.3 76.2 - - - +
103C GLU* 1.3 64.3 + - - +
105C SER* 2.9 28.6 + - - +
106C LEU* 3.1 13.2 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLU 103 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
30C TYR* 2.6 25.6 + - - +
58C LYS* 2.9 37.1 + - - -
99C ALA 2.9 22.1 + - - +
100C ILE* 3.8 4.7 - - - +
102C LEU* 1.3 71.3 - - - +
104C LYS* 1.3 58.1 + - - +
106C LEU* 3.2 9.5 + - - +
107C ASN* 2.8 30.8 + - - +
137C GLU* 2.7 25.5 - - - +
140C LEU* 3.5 14.2 - - + +
141C ILE* 3.7 22.0 - - + -
144C MET* 3.9 16.2 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LYS 104 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
3B GLN 3.0 28.3 + - - -
4B ILE* 3.8 20.0 - - - +
5B ARG 4.5 8.0 + - - -
6B GLN* 2.8 48.2 + - + +
100C ILE* 2.9 35.8 + - + +
101C VAL* 3.5 10.6 - - - +
103C GLU* 1.3 78.4 - - - +
105C SER* 1.3 56.7 + - - +
107C ASN* 3.4 0.8 + - - +
108C GLN* 3.0 13.2 + - - +
141C ILE* 4.1 10.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 105 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
22C LEU* 4.8 4.9 - - - +
101C VAL* 3.1 11.6 + - - -
102C LEU* 2.9 27.2 + - - +
104C LYS* 1.3 72.6 - - - +
106C LEU* 1.3 68.0 + - - +
108C GLN* 3.3 8.4 + - - +
109C ALA* 3.0 23.4 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 106 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C LEU* 4.8 0.7 - - - +
22C LEU* 3.9 41.3 - - + +
23C TYR* 4.0 20.9 - - + +
26C ALA* 3.9 14.6 - - + -
58C LYS* 3.7 41.1 - - + +
102C LEU* 3.1 17.0 + - + +
103C GLU* 3.5 16.8 - - - +
105C SER* 1.3 79.2 + - - +
107C ASN* 1.3 63.0 + - - +
109C ALA* 3.2 7.5 + - - +
110C LEU* 3.1 27.9 + - - +
137C GLU* 4.5 6.1 - - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ASN 107 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6B GLN* 2.9 28.3 - - - +
72B ARG* 5.8 0.7 + - - -
103C GLU 2.8 18.1 + - - +
104C LYS 3.6 0.9 - - - +
106C LEU* 1.3 77.8 - - - +
108C GLN* 1.3 62.2 + - - +
110C LEU* 3.2 10.0 + - - +
111C LEU* 2.9 40.4 + - - +
134C LEU* 4.7 6.7 + - - +
137C GLU* 3.3 31.8 - - + +
138C VAL* 4.8 10.1 - - - +
141C ILE* 4.0 9.4 - - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLN 108 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6B GLN* 3.8 19.0 + - - +
7B ASN* 5.3 2.8 - - - +
104C LYS 3.0 15.4 + - - +
105C SER* 3.3 11.9 + - - +
107C ASN* 1.3 75.3 - - - +
109C ALA* 1.3 56.7 + - - +
111C LEU* 3.2 21.2 + - - +
112C ASP* 2.8 58.5 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 109 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C ARG* 4.7 16.9 + - - +
19C LEU* 3.5 23.5 - - + +
22C LEU* 3.7 17.5 - - + -
105C SER 3.0 12.9 + - - +
106C LEU 3.2 9.6 + - - +
108C GLN* 1.3 74.8 - - - +
110C LEU* 1.3 58.6 + - - +
112C ASP* 3.6 8.7 + - - +
113C LEU* 3.0 28.1 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 110 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
19C LEU* 3.7 25.4 - - + -
23C TYR* 3.7 18.2 - - + +
106C LEU 3.1 13.9 + - - +
107C ASN* 3.2 10.5 + - - +
109C ALA* 1.3 72.8 - - - +
111C LEU* 1.3 56.7 + - - +
113C LEU* 3.1 5.1 + - - +
114C HIS* 2.7 37.4 + - - +
129C LEU* 4.2 14.3 - - + +
133C PHE* 3.6 46.2 - - + +
134C LEU* 3.9 14.1 - - + -
137C GLU* 4.0 25.4 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 111 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
6B GLN* 4.7 5.4 - - - +
7B ASN* 3.7 40.2 - - + +
123B PRO* 3.8 24.6 - - + +
124B HIS* 6.1 2.2 - - + -
107C ASN* 2.9 36.7 + - - +
108C GLN* 3.4 26.5 - - - +
110C LEU* 1.3 78.1 - - - +
112C ASP* 1.3 60.5 + - - +
114C HIS* 3.5 5.9 + - - +
115C ALA* 3.2 20.3 + - - +
134C LEU* 4.2 15.9 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ASP 112 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
18C ARG* 5.4 7.0 + - - +
108C GLN* 2.8 49.3 + - - +
109C ALA* 3.9 7.6 - - - +
111C LEU* 1.3 72.2 - - - +
113C LEU* 1.4 62.0 + - - +
115C ALA* 3.0 18.2 + - - +
116C LEU* 3.0 12.7 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 113 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C VAL* 4.3 7.9 - - + -
15C ALA* 3.5 30.7 - - + +
16C VAL* 4.3 20.4 - - + +
19C LEU* 3.5 29.8 - - + -
65C LEU* 5.1 0.4 - - + -
109C ALA 3.0 18.2 + - - +
110C LEU 3.6 4.0 - - - +
112C ASP* 1.4 72.7 - - - +
114C HIS* 1.3 62.7 + - - +
116C LEU* 3.2 14.3 + - + +
117C GLY* 2.9 20.6 + - - -
125C LEU* 3.8 16.3 - - + +
129C LEU* 3.8 23.1 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with HIS 114 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
123B PRO* 3.4 32.3 - - + +
110C LEU 2.7 21.0 + - - +
111C LEU* 3.6 9.2 - - - +
113C LEU* 1.3 73.6 - - - +
115C ALA* 1.3 60.0 + - - +
117C GLY* 3.2 2.3 + - - -
118C SER* 3.0 28.1 + - - -
126C CYS* 3.7 39.5 - - + +
129C LEU* 3.7 15.3 - - + +
130C GLU* 2.8 28.9 + - - -
134C LEU* 3.9 13.5 - - + -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 115 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
121B ALA* 6.2 3.6 - - + -
111C LEU 3.2 10.6 + - - +
112C ASP* 3.0 13.5 + - - +
114C HIS* 1.3 75.8 + - - +
116C LEU* 1.3 59.7 + - - +
118C SER* 3.0 9.3 + - - -
119C ALA* 2.9 29.0 + - - +
----------------------------------------------------------
Back to top of page
Residues in contact with LEU 116 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
11C GLU* 3.6 50.9 - - + +
12C VAL* 3.7 9.2 - - + -
15C ALA* 3.8 16.4 - - + -
112C ASP 3.0 11.0 + - - +
113C LEU* 3.2 10.7 + - + +
115C ALA* 1.3 72.4 - - - +
117C GLY* 1.3 61.8 + - - +
119C ALA* 3.0 8.6 + - + +
120C GLN* 2.8 49.7 + - + +
----------------------------------------------------------
Back to top of page
Residues in contact with GLY 117 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
12C VAL* 4.3 3.8 - - - -
113C LEU 2.9 11.1 + - - -
114C HIS 3.2 3.6 + - - -
116C LEU* 1.3 75.0 - - - +
118C SER* 1.3 54.2 + - - +
120C GLN* 3.6 0.8 + - - -
121C ALA 3.0 5.9 + - - -
122C ASP* 2.6 37.0 + - - +
125C LEU* 3.5 27.3 - - - +
126C CYS* 3.6 9.4 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with SER 118 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
114C HIS* 3.0 24.6 + - - -
115C ALA* 3.0 14.6 + - - -
117C GLY* 1.3 73.9 - - - +
119C ALA* 1.3 63.6 + - - +
121C ALA* 3.1 14.4 + - - +
122C ASP 4.7 0.4 - - - +
126C CYS* 3.5 12.2 - - - -
----------------------------------------------------------
Back to top of page
Residues in contact with ALA 119 (chain C).
Click here for Legend to table.
----------------------------------------------------------
Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
115C ALA 2.9 17.9 + - - +
116C LEU* 3.0 10.5 + - + +
118C SER* 1.3 75.6 - - - +
120C GLN* 1.3 67.9 + - + +
121C ALA* 3.3 2.4 + - - +
----------------------------------------------------------
Back to top of page
A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
------------------------------------------------------------
Atomic class I II III IV V VI VII VIII
------------------------------------------------------------
I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
------------------------------------------------------------
Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il